Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
Smarca4

Cell type

Cell type Class
Neural
Cell type
Nucleus Accumbens
MeSH Description
Collection of pleomorphic cells in the caudal part of the anterior horn of the LATERAL VENTRICLE, in the region of the OLFACTORY TUBERCLE, lying between the head of the CAUDATE NUCLEUS and the ANTERIOR PERFORATED SUBSTANCE. It is part of the so-called VENTRAL STRIATUM, a composite structure considered part of the BASAL GANGLIA.

Attributes by original data submitter

Sample

source_name
nucleus accumbens
genotype
wild-type
cell type
D2-MSN
Sex
male
treatment
saline
antibody
Brg1 (13-2002, EpiCypher)
administration
IP-injection

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Nuclei were prepared through discontinuous sucrose gradient centrifugation, isolated through INTACT approach, and subject to CUT&RUN procedures. Sequencing libraries were prepared using the NEBNext® Ultra™ II DNA Library Prep Kit for Illumina® (E7645, New England BioLabs) with NEBNext® Multiplex Oligos for Illumina® (Dual Index Primers Set 1) (E7600S, New England BioLabs) based on manufacture instructions.

Sequencing Platform

instrument_model
Illumina NovaSeq 6000

mm10

Number of total reads
29355788
Reads aligned (%)
62.7
Duplicates removed (%)
26.7
Number of peaks
164 (qval < 1E-05)

mm9

Number of total reads
29355788
Reads aligned (%)
62.6
Duplicates removed (%)
26.7
Number of peaks
143 (qval < 1E-05)

Base call quality data from DBCLS SRA